5KT6 Transferase date Jul 11, 2016
title Teranry Complex Of Human Dna Polymerase Iota(1-445) Insertin Opposite Template G In The Presence Of Mg2+
authors J.Y.Choi, A.Patra, M.Yeom, Y.S.Lee, Q.Zhang, M.Egli, F.P.Guengeric
compound source
Molecule: Dna (5'-D(Ptpgpgpgpgptpcpcpt)-3')
Chain: T
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Papgpgpapcpcpc)-3')
Chain: P
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna Polymerase Iota
Chain: A
Fragment: Unp Residues 1-445
Synonym: Eta2,Rad30 Homolog B
Ec: 2.7.7.7
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Poli, Rad30b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 65 2 2
R_factor 0.204 R_Free 0.244
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.269 98.269 201.656 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.54 Å
ligand 0KX, MG enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceKinetic and Structural Impact of Metal Ions and Genetic Variations on Human DNA Polymerase iota., Choi JY, Patra A, Yeom M, Lee YS, Zhang Q, Egli M, Guengerich FP, J Biol Chem. 2016 Aug 23. pii: jbc.M116.748285. PMID:27555320
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (5kt6.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 5KT6
  • CSU: Contacts of Structural Units for 5KT6
  • Structure Factors (177 Kb)
  • Retrieve 5KT6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KT6 from S2C, [Save to disk]
  • Re-refined 5kt6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5KT6 in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 5KT6
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 5kt6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kt6_P] [5kt6] [5kt6_T] [5kt6_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5KT6
  • Community annotation for 5KT6 at PDBWiki (http://pdbwiki.org)

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